Additional file 7: Figure S3. of Guanylate-binding protein-1 is a potential new therapeutic target for triple-negative breast cancer

Quality assessment of RNA-Seq data. (A) FastQC [30] plot of the Phred scores of each nucleotide position of all reads before and after Skewer [31] trimming for BT549, MCF7, MDAMB436 and MDAMB468, sequenced at LaCTAD-UNICAMP, and MDAMB231 and SKBR3, sequenced at HTSF-UNC. (B) RNA-Seq data from in-house-sequenced cell lines were evaluated for reproducibility by comparing the log2 RSEM +1 values of 48 genes with the obtained qPCR 1/ΔCT values. Density of raw log2-transformed RSEM values for the in-house-sequenced and Varley et al. [25] and Daemen et al. [26] datasets (C, left) and the normalized RSEMs (C, right), showing success in the harmonization of all data, despite variations in sample preparation and sequencing (XLS 4164 kb)